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Phylogenetic relationships of annual and perennial wild rice: probing by direct DNA sequencing


The phylogenetic relationships between Asian wild rice strains were analyzed by direct sequencing of PCR-amplified DNA fragments. The sequence of three introns located in the phytochrome gene was determined for eight strains of the Asian wild rice, Oryza rufipogon, and one strain of the related African species, Oryza longistaminata. The number of nucleotide substitutions per site between various strains within a single species, O. rufipogon, ranged between 0.0017 and 0.0050, while those between two related species, O. rufipogon and O. longistaminate, were 0.043–0.049 (23–26 within 532 bp). Taken together with the sequence differences of the 10-kDa prolamin gene, a model is proposed for the phylogenetic relationships and evolutionary history of annuals and perennials within O. rufipogon.

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Communicated by K. Tsunewaki

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Barbier, P., Morishima, H. & Ishihama, A. Phylogenetic relationships of annual and perennial wild rice: probing by direct DNA sequencing. Theoret. Appl. Genetics 81, 693–702 (1991).

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Key words

  • Asian wild rice
  • Phytochrome intron
  • Polymerase chain reaction (PCR)
  • Direct DNA sequencing
  • Intraspecific DNA polymorphism